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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actattgtctcttgggaaaatatccaataaccaatttgtcttcaattttgaagaaatgctcatcatttgctttaatagtatggtgttgttgtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCACAAGAGTCTTCGAGGTCCAAGGGGAGGCATAATTTTTTATCGGAAAGGTA

Basic information

species Glycine max
transcript GLYMA08G20050.3
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G20050.3 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0034g02380.t01 (Vitis vinifera), 3'ss of exon 1
actattgtctcttgggaaaat-atccaataaccaatttgtcttcaattttgaagaaatgctcatcatttgctttaatagtatggtgtt----gttgtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCACAAGAGTCTTCGAGGTCCAAGGGGAGGCATAATTTTTTATCGGAAAGGTA
      | ||  ||   |||| |  |  | ||    || |   | | ||     |  |  |||  ||||  |||  || | | |||||    | ||| | |  |||||||||| || ||||||||||| ||||| |||||||| |||||||||||||| ||||| || ||||| ||||||||||| ||||||||| | || ||||
---tcaggctaatgaagaaatgaatcttttacatgcttataagctactt--gtcatctattcacaatttatttttctaatgttgtgtttactgatgtttctctagGAATGTGTAAACCCTTTTGATTACTGTGATATTGTTACCTCAACAACTCACAAAAGTCTACGGGGTCCCAGGGGAGGCATCATTTTTTATAGAAAGGGTA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|5058246|gb|AI736722.1|AI736722
EST:     CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAG                         GAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
genomic: CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAGgtgtgaaata ... gtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
EST: gi|213593771|gb|DB957891.1|DB957891
EST:     CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAG                         GAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
genomic: CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAGgtgtgaaata ... gtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
EST: gi|7588515|gb|AW704239.1|AW704239
EST:     GGCATAATTGCAGCCAAG                         GAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
genomic: GGCATAATTGCAGCCAAGgtgtgaaata ... gtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
EST: gi|22539881|gb|BU089724.1|BU089724
EST:     CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAG                         GAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC
genomic: CTGTGTTGTTGTGTGACATGGCGCAGATTAGTGGCATAATTGCAGCCAAGgtgtgaaata ... gtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttgaagaaatgctcatcatttgctttaatagtatggtgttgttgtctttgcagGAATGTGTGAATCCTTTTGATTATTGTGACATTGTTACTTCAACAACTCACAAGAGTCTTCGAGGTCCAAGGGGAGGCATAATTTTTTATCGGAAAGGTA
                        ctttaat  putative branch site (score: 4)
                                           ttgtcttt  putative PPT
                         tttaatagtat  TA-rich tract